Data from: The hidden history of the snowshoe hare, Lepus americanus: extensive mitochondrial DNA introgression inferred from multilocus genetic variation

Melo-Ferreira J, Seixas FA, Cheng E, Mills LS, Alves PC

Date Published: August 14, 2014

DOI: http://dx.doi.org/10.5061/dryad.21f62

 

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Title SPTBN1_pre-phase
Downloaded 10 times
Description SPTBN1 alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 1_SPTBN1_raw.fas (58.20 Kb)
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Title PRKCI_pre-phase
Downloaded 4 times
Description PRKCI alignment before phasing (see GenBank accession numbers in Sup. Table 1).
Download 2_PRKCI_raw.fas (38.86 Kb)
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Title DARC_pre-phase
Downloaded 6 times
Description DARC alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 3_DARC_raw_final_final.fas (73.77 Kb)
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Title KITLG_pre-phase
Downloaded 3 times
Description KITLG alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 4_KITLG_raw.fas (50.64 Kb)
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Title TF_pre-phase
Downloaded 4 times
Description TF alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 5_TF_raw.fas (36.19 Kb)
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Title POLA1_pre-phase
Downloaded 8 times
Description POLA1 alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 6_POLA1_raw_final.fas (76.39 Kb)
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Title GRIA3_pre-phase
Downloaded 3 times
Description GRIA3 alignment before phase detemrination (see GenBank accession numbers in Sup. Table 1).
Download 7_GRIA3_raw.fas (80.33 Kb)
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Title SRY
Downloaded 7 times
Description SRY alignment (see GenBank accession numbers in Sup. Table 1).
Download 8_SRY_raw.fas (89.03 Kb)
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Title CYTB
Downloaded 9 times
Description CYTB alignment (see GenBank accession numbers in Sup. Table 1).
Download 9_CYTB_raw.fas (54.34 Kb)
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Title SPTBN1_phased
Downloaded 5 times
Description SPTBN1 phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 1_SPTBN1_phased.fas (116.5 Kb)
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Title PRKCI_phased
Downloaded 5 times
Description PRKCI phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 2_PRKCI_phased.fas (77.90 Kb)
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Title DARC_phased
Downloaded 5 times
Description DARC phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 3_DARC_phased_final.fas (147.7 Kb)
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Title KITLG_phased
Downloaded 6 times
Description KITLG phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 4_KITLG_phased.fas (101.4 Kb)
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Title TF_phased
Downloaded 5 times
Description TF phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 5_TF_phased.fas (72.56 Kb)
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Title POLA1_phased
Downloaded 7 times
Description POLA1 phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 6_POLA1_phased_final.fas (105.4 Kb)
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Title GRIA3_phased
Downloaded 6 times
Description GRIA3 phased alignment (see GenBank accession numbers in Sup. Table 1).
Download 7_GRIA3_phased_final.fas (110.2 Kb)
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Title SPTBN1_lnrb
Downloaded 4 times
Description SPTBN1 phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 1_SPTBN1_lnrb.fas (100.8 Kb)
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Title PRKCI_lnrb
Downloaded 2 times
Description PRKCI phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 2_PRKCI_lnrb.fas (67.44 Kb)
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Title DARC_lnrb
Downloaded 4 times
Description DARC phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 3_DARC_lnrb_final.fas (126.6 Kb)
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Title KITLG_lnrb
Downloaded 4 times
Description KITLG phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 4_KITLG_lnrb.fas (77.05 Kb)
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Title TF_lnrb
Downloaded 3 times
Description TF phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 5_TF_lnrb.fas (58.00 Kb)
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Title POLA1_lnrb
Downloaded 5 times
Description POLA1 phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 6_POLA1_lnrb.fas (60.65 Kb)
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Title GRIA3_lnrb
Downloaded 5 times
Description GRIA3 phased alignment of longest non-recombining blocks (see GenBank accession numbers in Sup. Table 1).
Download 7_GRIA3_lnrb_final.fas (107.2 Kb)
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Title SPTBN1_with_outgroup
Downloaded 3 times
Description SPTBN1 phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 1SPTBN1_with_outgroup.fas (101.9 Kb)
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Title PRKCI_with_outgroup
Downloaded 4 times
Description PRKCI phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 2_PRKCI_with_outgroup.fas (67.40 Kb)
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Title DARC_with_outgroup
Downloaded 5 times
Description DARC phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 3_DARC_with_outgroup_final.fas (128.1 Kb)
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Title KITLG_with_outgroup
Downloaded 4 times
Description KITLG phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 4_KITLG_with_outgroup.fas (77.99 Kb)
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Title TF_with_outgroup
Downloaded 3 times
Description TF phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 5_TF_with_outgroup.fasta (59.37 Kb)
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Title POLA1_with_outgroup
Downloaded 4 times
Description POLA1 phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 6_POLA1_with_outgroup.fas (61.23 Kb)
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Title GRIA3_with_outgroup
Downloaded 5 times
Description GRIA3 phased alignment of longest non-recombining blocks with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 7_GRIA3_with_outgroup_final.fas (75.94 Kb)
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Title SRY_with_outgroup
Downloaded 4 times
Description SRY alignment with outgroup (see GenBank accession numbers in Sup. Table 1).
Download 8_SRY_with_outgroup.fas (93.56 Kb)
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Title CYTB_with_outgroups
Downloaded 6 times
Description CYTB alignment with outgroups (see GenBank accession numbers in Sup. Table 1).
Download 9_CYTB_with_outgroups.fas (57.21 Kb)
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Title CYTB_Lepus_spp
Downloaded 5 times
Description CYTB alignment of haplotypes obtained in this work and other Lepus species available in GenBank (see Sup. Figure 4).
Download CYTB_Lepus_spp.fas (60.04 Kb)
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When using this data, please cite the original publication:

Melo-Ferreira J, Seixas FA, Cheng E, Mills LS, Alves PC (2014) The hidden history of the snowshoe hare, Lepus americanus: extensive mitochondrial DNA introgression inferred from multilocus genetic variation. Molecular Ecology 23(18): 4617-4630. http://dx.doi.org/10.1111/mec.12886

Additionally, please cite the Dryad data package:

Melo-Ferreira J, Seixas FA, Cheng E, Mills LS, Alves PC (2014) Data from: The hidden history of the snowshoe hare, Lepus americanus: extensive mitochondrial DNA introgression inferred from multilocus genetic variation. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.21f62
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